genome

Name

datasets summary genome - Print a data report containing genome metadata

Synopsis

datasets summary genome [flags]

Description

Print a data report containing genome metadata. The data report is returned in JSON format.

Examples

  datasets summary genome accession GCF_000001405.40
  datasets summary genome taxon "mus musculus"
  datasets summary genome taxon human --assembly-level chromosome,complete
  datasets summary genome taxon "mus musculus" --search C57BL/6J --search "Broad Institute"

Options

      --annotated                 Limit to annotated genomes
      --api-key string            Specify an NCBI API key
      --as-json-lines             Output results in JSON Lines format
      --assembly-level string     Limit to genomes at one or more assembly levels (comma-separated):
                                    * chromosome
                                    * complete
                                    * contig
                                    * scaffold
                                     (default "[]")
      --assembly-source string    Limit to 'RefSeq' (GCF_) or 'GenBank' (GCA_) genomes (default "all")
      --assembly-version string   Limit to 'latest' assembly accession version or include 'all' (latest + previous versions)
      --debug                     Emit debugging info
      --exclude-atypical          Exclude atypical assemblies
      --exclude-multi-isolate     Exclude assemblies from multi-isolate projects
      --from-type                 Only return records with type material
      --help                      Print detailed help about a datasets command
      --limit string              Limit the number of genome summaries returned
                                    * all:      returns all matching genome summaries
                                    * a number: returns the specified number of matching genome summaries
                                       (default "all")
      --mag string                Limit to metagenome assembled genomes (only) or remove them from the results (exclude) (default "all")
      --reference                 Limit to reference genomes
      --released-after string     Limit to genomes released on or after a specified date (MM/DD/YYYY)
      --released-before string    Limit to genomes released on or before a specified date (MM/DD/YYYY)
      --report string             Choose the output type:
                                    * genome:   Retrieve the primary genome report
                                    * sequence: Retrieve the sequence report
                                    * ids_only: Retrieve only the genome identifiers
                                     (default "genome")
      --search strings            Limit results to genomes with specified text in the searchable fields:
                                  species and infraspecies, assembly name and submitter.
                                  To search multiple strings, use the flag multiple times.
      --version                   Print version of datasets

Commands